What to know?

1. Basic R skills
2. Basic Unix/Linux skills

What to bring?

1. Bring laptop
2. A GitHub account?

Which R packages to install/load?

pkg <- c("ggplot2", "rmarkdown", "knitr", "dplyr");
lapply(pkg, function(x) { if (!require(x, character.only = TRUE, quietly = TRUE)) {
  install.packages(x);
  require(x, quietly = TRUE)}
})

What data to work with?

We will use the starwars dataset from dplyr.

head(starwars, n = 4);

## # A tibble: 4 x 13
##             name height  mass hair_color  skin_color eye_color birth_year
##            <chr>  <int> <dbl>      <chr>       <chr>     <chr>      <dbl>
## 1 Luke Skywalker    172    77      blond        fair      blue       19.0
## 2          C-3PO    167    75       <NA>        gold    yellow      112.0
## 3          R2-D2     96    32       <NA> white, blue       red       33.0
## 4    Darth Vader    202   136       none       white    yellow       41.9
## # ... with 6 more variables: gender <chr>, homeworld <chr>, species <chr>,
## #   films <list>, vehicles <list>, starships <list>

1. Start RStudio
2. Create new R Markdown document

3. Specifiy output option

Exercise: Create a new R Markdown document in RStudio

1. Headers
2. Emphasis: bold and italics
3. Lists: Ordered and unordered
4. Images and links
5. Blockquotes

A note on different Markdown flavours: GitHub, R Markdown, vanilla Markdown, …

…

1. Use ![](path/to/image.png)
2. Use HTML <img src="path/to/image.png" style="width:200px;">
3. Use knitr::include_graphics

1. Word
2. PDF
3. HTML

Exercise: Create different output documents

1. Title and subtitle
2. Author
3. Date
4. Output option

More details for every output option

1. Chunk options
2. Plot dimensions
3. Transparency

Exercise: Show different chunk options

1. General: How to output tables/dataframes?
2. knitr::kable()
3. DT::datatable

Excercise: Output a table

suppressMessages(library(knitr));
kable(starwars[1:4, 1:4])

suppressMessages(library(DT));
#DT::datatable(starwars, options = list(dom = "ftp", scrollX = TRUE, pageLength = 4));
DT::datatable(starwars[, 1:4], options = list(pageLength = 8));

1. plotly
2. D3 in R

Load the necessary libraries:

suppressMessages(library(ggplot2));
suppressMessages(library(plotly));

## Warning: package 'plotly' was built under R version 3.4.1

suppressMessages(library(scatterD3));

ggplotly(ggplot(starwars, aes(x = height, y = mass, label = name)) + geom_point(), height = 5);

scatterD3(x = starwars$height, y = starwars$mass, lab = starwars$name);

R Markdown and shiny

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